MmuINT0100562 @ mm9
Intron Retention
Gene
ENSMUSG00000026471 | Mr1
Description
major histocompatibility complex, class I-related [Source:MGI Symbol;Acc:MGI:1195463]
Coordinates
chr1:156975008-156977861:-
Coord C1 exon
chr1:156977763-156977861
Coord A exon
chr1:156976456-156977762
Coord C2 exon
chr1:156975008-156976455
Length
1307 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AAACCTTCTTTTCCTTTCAGAAC
3' ss Score
10.61
Exon sequences
Seq C1 exon
AATCAGGGGACATCCTTCGAGTGAGCACGATCTCTGGAACCACAATTCTCATCATCGCCCTGGCTGGAGTTGGTGTTCTGATCTGGAGAAGGTCACAAG
Seq A exon
GTGAGAGGCAAGCAGGACTCTTGGCAGATGCTGCTAGTAGTTTCCTGAGGCTTCTGTTCACTGGATCTGCCACTTGAGTTCCAATTAGAAACAGATAGACCATCATGTAAGAATCACATGAGGGCCTGGGACAACATTTCCCCTCTGTAGAGGAAACACCTGTTAATTTTTCCATTTGTCTTAGTGTGTGTTTCCATTGCTGTGAAGAGACACCATGACCAAGGCAACTCTTATAAAGGACATTTAATTGGGGCTCACACTTTAAGAGGTCCAGTGCATTATTATGATGGAGGGAAGCATGGCAGGGTGCAGGCAAACATGGCGCTGGAGTAGCTGATTATTTCTGCACCTTGATCAGAAGGCAGCTATGAGAAGTCTCTCCTCTAGAAAGCTAGGAGAAGGGTCTCAAAGCCCACCCCCAAAGTGACACACTTCCTCCAACAAGGCCACACCCAATCCAACAAGGCCACACCCCTAGTAGTGCCACTTCCTGGGCCAAGTATATTCAAACCACCACACCATTCTTCTATCCCAATTATATGAAAGTCTTCTTTCTTTGAAATTCACTTCTCAGCACATGAACTGTTTAAAAGTCGATACCATTATAAAATAGGACTTGAGATAAGGAGAAGGAGGAAGGAGATATGCTTTAGATAGCATAGATAATAAATCCATTCATTAAACGTGTACTAAATGTCTGTTGTATAAATCTATTCATTAAAAAACATGTATGAAATGTCTGTTGTGCTTTAAGCATCATACTGACTCCTGGGAAACAGCAATGGAAAGGACAAGCAAGACCCCATGTCGTAGAGCTAATGGCATAATCTTGAAATGTCATTTTCTATTTCTGGTTTACTAGTTACTCAAGCTGATCACAACAGATATTAATGAAACCTGGATCAGGGCTCAGAAGCTGGGTGGGTGAGAGCTTGCTTTTTCTTGACTGTTGATGACTTGAAACCAATCCAGGGGATACTATACGTGTGTGGTATTAGTTACTCGTCGGAACCAGTCCATTTGCTAGAAAATCAACCCAGCTAGTGGGTAAGTAATGTTTCCATAATCAATAGAGTACAATACGAATCCTTAACACGTCAACACATACATCTTAAGAAGAAAGTTCCTGCTTCTTCTCCTCTGGAGTTTGTAAATTTTGAGTTAAAAAGTGACAAGTTCTAGGAGAATCTTGAGAAAGCAGACTAAAACTGTCAGTGGCTGCTTCAAGGTTTTGCTGAATATTGCTAATTTTTTGAGCTATGAGAAAGCTATACAGATAACTCACTAAAACCTTCTTTTCCTTTCAG
Seq C2 exon
AACTAAAAGAAGTCATGTACCAACCCACCCAAGTGAATGAGGGAAGCTCTCCCTCTTAGGAGCCACAATCTCTGCTCTCAGGCATCCGCATGTCTTGGCCATACTCCTGATGCAACCGGGGACTGTAAAACTGAGCACTTGTGACAGGAAGATAGGAGCTACAAATTTTTCTTCATTCTTTGGCTCCAGAAGAGCTGTCAACTTTTAGGCTCTTGATAGACTCCTTTATCACAGTCAACTTTAAATATAGTTTGTCTCATGACCCAATACTTCCCAATATTGTAGTTCTCAATAGTGATTTACAAGTAGATCACAGAGTATCAGAGCCGCAAGCAACTTTCTCACCTAAGCAGGAGATGTCTTCTAAAATGTCATAGACTTGAGCATTAGCCTTCACTCAACATTATGTGCAAGTTCCCCCATTCTACTACAAAACAGCCTTTCTTGTTCATTTTCTCTCCTGAGAATGTTTACCATGTAAGAACTTTGACCACTATGGCTCTCATGTTTGAGAATCTATAAGTAGGGTTGAGCCAACCCATGAAAATAGCCAGCAAGTTTCTACAGCAGCCTTTGAGTGGACGAGTCACTATATACATATCATGGCCCAAGGGGAGGCAGAAGTATCCAGTTCATGGTGGCTCTGTCAGAAAGCAAGGAATATTGCATGTTTGTCTGGCTACATTTATGGCAATGACTTCCTTTGCTTTTACTGTTTCTGTGAGAAATTAGAACAATAATTTATCAAGCTGAGTGTGATGGGAATCTTAGAAGCCCAGTACTCAGGAAGCTGAAGCAGGTAGATTTTACATTTGGGGCTAGCTTGAGCTACACAATGAAACCCTATCTGAAATAAACCAAAACAACAACAACAGCAACACACTTAACAGAACTAAAACAATCATTACCAGACATATTGTCCCCTCCCATGGAACGGCAGACCTAGACTCACTTGCAATATTTCAACATGAAATAATAGTGTTTGGCTGGAGATGTCCAGGTGGGTGAAGATGTCTGTTGCCAAGCATGTCCACCTGAGGTCAGACACCCTGACCCACACACACAGTGAAAGAAAAAAACTGACTCCTGAAAGTTGCCCTCTGACCTCTCCATGAGTGCTAAACTAAGGTTTTTATTTTTGTTTTTGTTTTAATCTGACAAAATGTGTTCATATGCTTATGTCTCAAAACGAGTTCTCTTTACTCTGGTATTGGAGACTGAACCAGTACAGAAAAGACAGGAGTTAGAATTGAACCTTTGGGGGTTTAGGGTGTAGCTCAGTGGCAGAGAATTTTCTTAGCATGTATGAGGCCCTGAGGTCAGTCTTCAGCACTTTGAACACACACACATACACACACCACCACCACCACCACCACTAATAACAAACAAAAACTAAAACTTTGGATCTTTCTTCTGTAAGTGGTTTTAAATTAAATTGTTTCTTAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026471-Mr1:NM_008209:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.684
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCTGATCTGGAGAAGGTCAC
R:
TGCGGCTCTGATACTCTGTGA
Band lengths:
358-1665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: